Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

72

Sequences:

1010

Seq/Len:

14.03

HH_delta:

0.754 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

21_E

29_R

0.86005

4.468

24_R

48_E

0.76558

3.977

22_T

25_E

0.50063

2.601

3_Y

44_T

0.44381

2.306

42_E

64_R

0.34462

1.790

6_L

40_L

0.30732

1.597

49_R

61_E

0.29123

1.513

50_A

53_G

0.28272

1.469

23_P

51_R

0.27545

1.431

31_A

41_E

0.26671

1.386

27_A

44_T

0.255

1.325

17_R

21_E

0.25301

1.314

43_L

69_L

0.25148

1.307

65_A

69_L

0.2472

1.284

59_A

63_Q

0.24668

1.282

17_R

26_Y

0.24546

1.275

3_Y

7_L

0.23935

1.244

7_L

26_Y

0.23934

1.243

30_L

34_G

0.23811

1.237

58_S

61_E

0.22954

1.193

21_E

26_Y

0.22923

1.191

12_R

67_E

0.22805

1.185

28_R

32_Q

0.22043

1.145

28_R

56_P

0.21512

1.118

46_L

65_A

0.21437

1.114

17_R

47_Y

0.21138

1.098

64_R

67_E

0.20856

1.084

7_L

17_R

0.19788

1.028

63_Q

67_E

0.1942

1.009

47_Y

51_R

0.19277

1.002

43_L

65_A

0.19023

0.988

20_S

25_E

0.18987

0.986

23_P

48_E

0.18917

0.983

50_A

57_P

0.18904

0.982

6_L

10_L

0.18815

0.978

41_E

60_E

0.18659

0.969

56_P

63_Q

0.186

0.966

38_E

63_Q

0.18597

0.966

65_A

68_A

0.18071

0.939

23_P

40_L

0.17525

0.910

23_P

47_Y

0.17373

0.903

57_P

62_F

0.17341

0.901

6_L

69_L

0.16508

0.858

4_R

23_P

0.16422

0.853

62_F

69_L

0.16375

0.851

27_A

31_A

0.16295

0.847

28_R

31_A

0.16264

0.845

25_E

47_Y

0.16174

0.840

6_L

62_F

0.15822

0.822

42_E

46_L

0.15782

0.820

15_I

30_L

0.15659

0.814

14_G

21_E

0.15644

0.813

16_P

26_Y

0.15449

0.803

22_T

44_T

0.15432

0.802

54_G

58_S

0.15422

0.801

48_E

68_A

0.15401

0.800

7_L

22_T

0.15208

0.790

61_E

64_R

0.15197

0.790

30_L

43_L

0.15154

0.787

23_P

44_T

0.15027

0.781

26_Y

47_Y

0.15019

0.780

47_Y

50_A

0.1493

0.776

22_T

50_A

0.14889

0.774

4_R

57_P

0.14728

0.765

58_S

64_R

0.14475

0.752

40_L

44_T

0.14399

0.748

21_E

25_E

0.14311

0.744

28_R

38_E

0.14215

0.739

14_G

30_L

0.14192

0.737

31_A

45_R

0.14143

0.735

5_A

8_R

0.14078

0.731

47_Y

53_G

0.14048

0.730

32_Q

45_R

0.13994

0.727

7_L

23_P

0.13969

0.726

60_E

64_R

0.13871

0.721

28_R

41_E

0.13738

0.714

31_A

34_G

0.13667

0.710

34_G

37_A

0.13612

0.707

52_Y

57_P

0.13556

0.704

7_L

52_Y

0.13469

0.700

15_I

21_E

0.13445

0.699

48_E

51_R

0.13401

0.696

49_R

54_G

0.13371

0.695

38_E

60_E

0.1337

0.695

23_P

52_Y

0.13311

0.692

10_L

34_G

0.13307

0.691

5_A

13_R

0.13241

0.688

28_R

59_A

0.13233

0.688

8_R

52_Y

0.1319

0.685

39_A

63_Q

0.12963

0.673

14_G

23_P

0.12936

0.672

3_Y

6_L

0.12929

0.672

2_L

43_L

0.12884

0.669

18_R

21_E

0.1288

0.669

42_E

68_A

0.12865

0.668

12_R

64_R

0.12841

0.667

62_F

66_R

0.12801

0.665

2_L

40_L

0.12727

0.661

39_A

43_L

0.12715

0.661

41_E

56_P

0.12691

0.659

38_E

41_E

0.12677

0.659

2_L

6_L

0.12625

0.656

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)